Developing infrastructures for FAIR data in plant biology - INRAE - Institut national de recherche pour l’agriculture, l’alimentation et l’environnement
Communication Dans Un Congrès Année : 2019

Developing infrastructures for FAIR data in plant biology

Cyril Pommier
Guillaume Cornut
  • Fonction : Auteur
Michael Alaux
Thomas Letellier
  • Fonction : Auteur
  • PersonId : 1203739
Célia Michotey
Nacer Mohellibi
Sophie Durand
Erik Kimmel
Hadi Quesneville

Résumé

INRA is involved in several EU infrastructures (e.g. ELIXIR, EMPHASIS) or global initiatives (e.g. Wheat Initiative, Research Data Alliance) contributing to the development of : (i) community recommendations for data standardization (e.g. Dzale-Yeumo et al 2017, https://doi.org/10.12688/f1000research.12234.2), (ii) data standards for phenotyping data (www.miappe.org), (iii) crop specific ontologies in the frame of the CropOntology (http://www.cropontology.org/) and (iv) standard web services (www.brapi.org). These global resources are used to capture the data produced in large scientific projects with a standard and structured vocabulary and to store them into INRA’s central repository for plant genomic, phenomic and genetic data, GnpIS (https://urgi.versailles.inra.fr/gnpis/) under the FAIR principles (https://www.force11.org/group/fairgroup/fairprinciples). In parallel, we have developed tools to support federation of databases. The first one is a light data discovery tool based on text indexing technologies, which allows to find data across several distinct databases based on a common high level generic data model (Spannagl et al 2016). The current federates 15 databases from 6 countries (https://urgi.versailles.inra.fr/wheatis/). Another tool allowing data search on phenotyping data and based on BrAPI web services is also about to be released in the frame of the H2020 ELIXIR-Excelerate project, n°676559. The long term resilience and success of such federations will highly depend on the capacity to animate and structure the community working on data for plant biology.

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hal-03316569 , version 1 (06-08-2021)

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Cyril Pommier, Guillaume Cornut, Michael Alaux, Windpouire Esther Dzale Yeumo, Raphaël Flores, et al.. Developing infrastructures for FAIR data in plant biology. Gatersleben Research Conference - Applied Bioinformatics for crops (GRC2019), IPK, Mar 2019, Gatersleben, Germany. ⟨hal-03316569⟩
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